Main
Océane Cassan
Currently searching for a postdoctoral position
Education
University of Montpellier
PhD in biostatistics for gene regulation
Montpellier, France
2022 (defense in december) - 2019
University Claude Bernard (UCBL)
MSc in Computer Science - Artificial Intelligence
Lyon, France
2019 - 2018
National Institute of Applied Sciences (INSA)
Engineering degree in Bioinformatics and Modelling
Lyon, France
2019 - 2014
Research Experience
PhD - Institute for Plant Sciences in Montpellier
Predictive biology to learn the regulatory pathways in plants under climate change, SIRENE team
Montpellier, France
2022 - 2019
- Statistical inference of the gene regulatory networks in Arabidopsis thaliana under elevated CO\(_2\) and nutritional limitations. Development of novel network reconstruction methods via ensembles of regression trees or penalized linear regression based on transcriptomic data and regulatory sequences information. Computational and experimental validation of network-derived hypotheses and candidate genes.
- Genome Wide Association studies to identify genetic determinants of mineral status repsonse under elevated CO\(_2\)
- Development of an interactive suite for reproducible transcriptomic analyses and the inference of regulatory networks
- Supervisors : Antoine Martin, Sophie Lèbre
6 months research internship - LIRMM, MAB team
Supervised learning to predict chromosomic interactions in the human genome, based on CAGE data and 3C techniques
Montpellier, France
2019
- Supervisor : Laurent Bréhélin
1 month research internship - LIRMM, MAB team
Sparse logistic regression to model transcription factor combinatorics for gene regulation in human
Montpellier, France
2017
- Supervisor : Laurent Bréhélin
Professional Experience
4 months internship in quantitative biology - Nanolive SA
Development of software tools for the 3D detection and tracking of biological objects in label free images
Lausanne, Switzerland
2018
Teaching Experience
Instructor of R for \(3^{rd}\) year bachelor plant biology students
University of Montpellier, France
2022 - 2021
- Good practices and scientific integrity around data analysis
- Data manipulation and visualisation in R
Instructor of Rmarkdown for Master data science students
University Paul Valery of Montpellier, France
2022 - 2020
Statistics and regression for network inference for Master plant biology students
University of Montpellier, France
2022
Student supervision
N/A
N/A
2021 - 2022
- Master intern in biostatistics appied to gene regulation and transcriptomics
- Master data science students for an annual project on Genome-Wide-Association studies
Publications
A gene regulatory network reveals the effects of elevated CO\(_2\) on nutrient signaling pathways and mineral composition in Arabidopsis
Océane Cassan, Léa-Lou Pimparé, Antoine Beckers, Alain Gojon, Liên Bach, Christian Dubos, Sophie Lèbre, Antoine Martin. 2022
N/A
2022 (In preparation)
The decline of plant mineral nutrition under rising CO\(_2\): physiological and molecular aspects of a bad deal
Alain Gojon, Océane Cassan, Liên Bach, Laurence Lejay, Antoine Martin. 2022 Review article, Trends in Plant Science.
N/A
2022 (Submitted)
Loss of Polycomb proteins CLF and LHP1 leads to excessive RNA degradation in Arabidopsis
David Séré, Océane Cassan, Fanny Bellegarde, Cécile Fizames, Jossia Boucherez, Geoffrey Schivre, Jacinthe Azevedo, Thierry Lagrange, Alain Gojon, Antoine Martin. 2022 Journal of Experimental Botany.
N/A
2022 (Submitted)
Inferring and Analyzing Gene Regulatory Networks from Multi-Factorial Expression Data: A Complete and Interactive Suite
Océane Cassan, Sophie Lèbre, and Antoine Martin. 2021 BMC Genomics 22 (1). See article
N/A
2021
Probing Transcription Factor Combinatorics in Different Promoter Classes and in Enhancers
Vandel Jimmy, Océane Cassan, Sophie Lèbre, Charles-Henri Lecellier, and Laurent Bréhélin. 2019 BMC Genomics 20 (1): 1–19. See article
N/A
2019
Talks
Machine Learning in Montpellier, Theory & Practice
Speaker
University of Montpellier
2022
- Discussing : Reconciling modern machine-learning practice and the classical bias–variance trade-off, Belkin et al, 2019.
Netbio, biological networks inference
Speaker
Virtual
2020
- Presenting the Dashboard for the Inference and Analysis of Networks from Expression data
Conference posters
Molecular responses of plants facing climate change
Organizer and presenter
Montpellier, France
2022
- Poster presenting genetic determinants to mineral status response under elevated CO\(_2\) in Arabidopsis populations
JOBIM
Presenter
Virtual
2021
- Poster presenting the Dashboard for the Inference and Analysis of Networks from Expression data
International Plant Systems Biology
Presenter
Virtual
2021
- Poster presenting Gene Regulatory Network inference of Arabidopsis under elevated CO\(_2\) and nutritional limitations